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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcatttgtcttggttcagtttctctcgcattatttggttagatcctcattagtttatgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCACTGATGAGGCAACACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCT

Basic information

species Glycine max
transcript GLYMA08G09170.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g10600.1 (Oryza sativa), 3'ss of exon 5
--------gtaagtttcatttgtcttggttcagtttctctcgcattatttggttagatcctcatta-gtttatgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCACTGATGAGGCAACACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCT---------
        || |          |  |||||   || ||||  | |||     | | ||  |||  | ||| |  |  ||||    |   | || ||   |||||||||||||| || |||||||| || || |||||||| || || || ||||| |||||||| || | || ||||||  |         
gtaatttagtcaagcatgccattaatggtttctttactctttc-ttaaaaaatcacatgttcaacatgttaactttgtgcaaccccagGTACTCCA---CAAATACACTGGTATATAATGACTAGCCCCTTTACTGATGAAGCGACTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGA

upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G31070.2 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------gtaagtttcatttg-tcttggttcagtttctctcgcattatttggttagatcctcattagtttatgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCACTGATGAGGCAACACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCT
                           ||  || ||   | | || || | |||  |  |  |||      |    ||| ||| |  |  |   || ||| | |   |  | ||||   |||||| ||||| || |||||||||||||| |||||||| || ||||| ||||  ||    ||||| || |  ||||||||
gtgagtgagactactcatggcttcttctatattccaacagatatttgtaccgtta-tgccatatttgacactcttttccgcataatatcttacgtt-cagGTCCAATTCGTCCAGTTACAATACATTGGTATATTATGACTAGTCCATTTACTGATGAAGCGACACGAAAATATTTCTCGAGTCACAAGTACTTTGGTCT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|6454569|gb|AW185252.1|AW185252
EST:     TGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGA                         ATTCTGCTTCTTCAGTGCAAATACACTGGTACATCATGACCAGTCCATTCA
genomic: TGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGAgtaagtttca ... tgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCA
EST: gi|10235209|gb|BE804156.1|BE804156
EST:     TGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGA                         ATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCA
genomic: TGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGAgtaagtttca ... tgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttcagtttctctcgcattatttggttagatcctcattagtttatgtattgcagATTCTTCTTCTTCAGTGCAAATACACTGGTACATCATGACTAGTCCATTCACTGATGAGGCAACACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCT
                                    attagtttatgtatt  TA-rich tract